Hi Nico,
On 04/26/2015 09:58 AM, Nicolas Delhomme wrote:
Hej Hervé (I guess)!
Could it be possible to move the generic from "seqnames" and "seqnames<-" from GenomeInfoDb to
BiocGenerics? I would then deprecate the "seq_name" and "seq_name<-" functions of the genomeIntervals
package and import them in the easyRNASeq package.
I guess I could.
However I want to make it clear that a generic function doesn't have
to go to BiocGenerics before it can be shared across packages. There
are situations where this kind of move actually helps to resolve
conflicts but it doesn't seem to be the case here. Any reason why
you can't just import GenomeInfoDb? This is what all the packages that
need the "seqnames" and "seqnames<-" generics currently do. Moving
these generics to BiocGenerics will likely break many of them.
Thanks,
H.
Cheers,
Nico
---------------------------------------------------------------
Nicolas Delhomme
The Street Lab
Department of Plant Physiology
Umeå Plant Science Center
Tel: +46 90 786 5478
Email: [email protected]
SLU - Umeå universitet
Umeå S-901 87 Sweden
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--
Hervé Pagès
Program in Computational Biology
Division of Public Health Sciences
Fred Hutchinson Cancer Research Center
1100 Fairview Ave. N, M1-B514
P.O. Box 19024
Seattle, WA 98109-1024
E-mail: [email protected]
Phone: (206) 667-5791
Fax: (206) 667-1319
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